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/*
Author: Scott Kuehn, Shane Neph
Date: Wed Sep 5 09:33:15 PDT 2007
*/
//
// BEDOPS
// Copyright (C) 2011-2022 Shane Neph, Scott Kuehn and Alex Reynolds
//
// This program is free software; you can redistribute it and/or modify
// it under the terms of the GNU General Public License as published by
// the Free Software Foundation; either version 2 of the License, or
// (at your option) any later version.
//
// This program is distributed in the hope that it will be useful,
// but WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License along
// with this program; if not, write to the Free Software Foundation, Inc.,
// 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
//
#ifndef OVR_UNIQUE_VISITOR_HPP
#define OVR_UNIQUE_VISITOR_HPP
#include <set>
#include <type_traits>
#include "data/bed/BedCompare.hpp"
namespace Visitors {
namespace BedSpecific {
template <
typename ProcessType,
typename BaseVisitor
>
struct OvrUnique : BaseVisitor {
typedef BaseVisitor BaseClass;
typedef typename BaseClass::RefType RefType;
typedef typename BaseClass::MapType MapType;
OvrUnique(const ProcessType& pt = ProcessType()) : pt_(pt), refItem_(0)
{ /* */ }
inline void SetReference(RefType* t) {
refItem_ = t;
}
// Append an element comprised of the coords overlapping target and reference
inline void Add(MapType* u) {
cache_.insert(u);
}
inline void Delete(MapType* u) {
cache_.erase(u);
}
// Calculate the sum of overlapping ranges
inline void DoneReference() {
unsigned int ovr = 0;
if ( !cache_.empty() ) {
typename std::remove_const<MapType>::type tmpOvrRange = **cache_.begin();
cacheI i = cache_.begin();
for ( ++i; i != cache_.end(); ++i ) {
if ( tmpOvrRange.overlap(**i) )
tmpOvrRange.eunion(**i);
else {
ovr += tmpOvrRange.intersection(*refItem_).length();
tmpOvrRange = **i;
}
} // for
ovr += tmpOvrRange.intersection(*refItem_).length();
}
pt_.operator()(ovr);
}
virtual ~OvrUnique() { /* */ }
protected:
typedef Bed::GenomicCompare<MapType, MapType> Comp;
typedef std::set<MapType*, Comp> SType; // OK not to use multiset
typedef typename SType::const_iterator cacheI;
ProcessType pt_;
RefType* refItem_;
SType cache_;
};
} // namespace BedSpecific
} // namespace Visitors
#endif // OVR_UNIQUE_VISITOR_HPP
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